Briefly, EV plaque assays were conducted using confluent BGM cells; in 60-mm dishes (cells cover the entire dish).
Optimization assays were conducted using factorial design, and surface response experiments with Aspergillus sp. The best detoxification rates achieved were 92% for caffeine and 65% for tannins.
ChIP-seq assays were conducted using the modENCODE pipeline as previously described [1].
Real time PCR assays were conducted using SYBR green master mix RT-PCR reagent.
All assays were conducted using low cell passage cells (2 5 passages).
ALT assays were conducted using a spectrophotometer following standard operating procedures.
Trypsin assays were conducted using a BAPNA (Nα-benzoyl-DL-arginine 4-nitroanilide; Acros Organics #227740010) substrate.
ChIP assays were conducted using the ChIP-IT Express Kit (Active Motif) according to the manufacturer's instructions.
Transglutaminase activity assays were conducted using a transglutaminase assay kit (Sigma-Aldrich #CS1070), and generally followed the manufacturer's directions.
Transglutaminase activity assays were conducted using a transglutaminase assay kit (Sigma-Aldrich #CS1070), and followed the manufacturer's directions including those for use with an inhibitor.
After treatment, the luciferase assays were conducted using the Dual-Luciferase Reporter Assay System (Promega, Annandale, NSW, AU), according to the manufacturer's instructions.
